Table 1. Primary sequence of the tested oligonucleotides and the predicted melting temperatures (Tm).
Modification | Probe designation/Codon change | Sequence | Tm |
LNA | WT (CGC) | 5′-CGCCAAGCGGCTCAT-3′ | 68°C |
R882C (CGC->TGC) | 5′-CGCCAAGCAGCTCAT-3′ | 66°C | |
R882H (CGC->CAC) | 5′-CGCCAAGTGGCTCAT-3′ | 66°C | |
R882P (CGC->CCC) | 5′-CGCCAAGGGGCTCAT-3′ | 67°C | |
R882S (CGC->AGC) | 5′-CGCCAAGCTGCTCAT-3′ | 66°C | |
BNA(NC) | WT (CGC) | 5′-CGCCA+AGCG+GCTCATGTT-3′ | 70°C |
R882C (CGC->TGC) | 5′-CGCC+A+AGCAG+CTC+ATGTT-3′ | 70°C | |
R882H (CGC->CAC) | 5′-CGCC+A+AGTG+GCTC+ATGTT-3′ | 70°C | |
R882P (CGC->CCC) | 5′-CGCCA+AGGGG+CTCATGTT-3′ | 70°C | |
R882S (CGC->AGC) | 5′-CGCC+A+AGCTG+CTC+ATGTT-3′ | 70°C |
The character “+N” denotes the position of any BNA(NC) modified nucleotide. The positions of LNA modification are proprietary property of Exiqon, Denmark and are, therefore, not disclosed.